6-HEX phosphoramidite [5'-Hexachlorofluorescein phosphoramidite]
Ordering information
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Additional ordering information
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Shipping | Standard overnight for United States, inquire for international |
Physical properties
Molecular weight | 1050.61 |
Solvent | MeCN |
Spectral properties
Correction Factor (280 nm) | 0.15 |
Extinction coefficient (cm -1 M -1) | 73000 |
Excitation (nm) | 533 |
Emission (nm) | 559 |
Storage, safety and handling
H-phrase | H303, H313, H333 |
Hazard symbol | XN |
Intended use | Research Use Only (RUO) |
R-phrase | R20, R21, R22 |
Storage | Freeze (< -15 °C); Minimize light exposure |
UNSPSC | 12171501 |
Overview | ![]() ![]() |
See also: Peptide and Oligonucleotide Labeling, Custom Oligonucleotide Labeling, Digital PCR, Fluoresceins, Polymerase Chain Reaction (PCR), Real-Time PCR (qPCR), Reverse Transcription PCR (RT-PCR), RNA Purification & Analysis, ROX Reference Dye for Real-Time PCR
CAS 1360547-55-2 | Molecular weight 1050.61 | Correction Factor (280 nm) 0.15 | Extinction coefficient (cm -1 M -1) 73000 | Excitation (nm) 533 | Emission (nm) 559 |
There are several ways of labeling an oligonucleotide with fluorescein. The choice of label is diversified further, depending on the spectral requirements. 5'-fluorescein-CE phosphoramidite, derived from the single isomer 6-carboxyfluorescein, 5'-hexachlorofluorescein-CE phosphoramidite (HEX) and 5'-tetrachlorofluorescein-CE phosphoramidite (TET) can all be used to efficiently label an oligonucleotide at the 5'-end. Labeling the 3'-end of an oligo with fluorescein can be achieved using 3'-Fluorescein CPGs. Standard cleavage and deprotection with ammonium hydroxide liberates the fluorescein-labeled oligo when using any of these supports.
Calculators
Common stock solution preparation
Table 1. Volume of MeCN needed to reconstitute specific mass of 6-HEX phosphoramidite [5'-Hexachlorofluorescein phosphoramidite] to given concentration. Note that volume is only for preparing stock solution. Refer to sample experimental protocol for appropriate experimental/physiological buffers.
0.1 mg | 0.5 mg | 1 mg | 5 mg | 10 mg | |
1 mM | 95.183 µL | 475.914 µL | 951.828 µL | 4.759 mL | 9.518 mL |
5 mM | 19.037 µL | 95.183 µL | 190.366 µL | 951.828 µL | 1.904 mL |
10 mM | 9.518 µL | 47.591 µL | 95.183 µL | 475.914 µL | 951.828 µL |
Molarity calculator
Enter any two values (mass, volume, concentration) to calculate the third.
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Spectrum
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![spectrum](/_next/image?url=https%3A%2F%2Fimages.aatbio.com%2Fspectra%2Fhex.png&w=2048&q=50)
![spectrum](/_next/image?url=https%3A%2F%2Fimages.aatbio.com%2Fspectra%2Fhex.png&w=2048&q=50)
Spectral properties
Correction Factor (280 nm) | 0.15 |
Extinction coefficient (cm -1 M -1) | 73000 |
Excitation (nm) | 533 |
Emission (nm) | 559 |
Product Family
Name | Excitation (nm) | Emission (nm) | Extinction coefficient (cm -1 M -1) | Correction Factor (280 nm) |
6-HEX, SE [6-Carboxy-2',4,4',5',7,7'-hexachlorofluorescein, succinimidyl ester] *Single Isomer* | 533 | 559 | 73000 | 0.15 |
6-HEX azide | 533 | 559 | 73000 | 0.15 |
6-HEX alkyne | 533 | 559 | 73000 | 0.15 |
6-FAM phosphoramidite [5'-Fluorescein phosphoramidite] *CAS 204697-37-0* | 493 | 517 | 83000 | 0.178 |
6-Fluorescein phosphoramidite | 498 | 517 | 800001 | 0.35 |
6-TET phosphoramidite [5'-Tetrachlorofluorescein phosphoramidite] *CAS#: 877049-90-6* | 521 | 542 | 73000 | 0.13 |
6-JOE Phosphoramidite | 520 | 545 | 750001 | - |
HEX-dT Phosphoramidite | 533 | 559 | 73000 | 0.15 |
6-HEX acid | 533 | 559 | 73000 | 0.15 |
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Images
References
View all 13 references: Citation Explorer
Sequence-specific, self-reporting hairpin inversion probes
Authors: Browne KA., undefined
Journal: J Am Chem Soc (2005): 1989
Authors: Browne KA., undefined
Journal: J Am Chem Soc (2005): 1989
Modified oligonucleotides containing lithocholic acid in their backbones: their enhanced cellular uptake and their mimicking of hairpin structures
Authors: Kim SJ, Bang EK, Kwon HJ, Shim JS, Kim BH.
Journal: Chembiochem (2004): 1517
Authors: Kim SJ, Bang EK, Kwon HJ, Shim JS, Kim BH.
Journal: Chembiochem (2004): 1517
Synthesis of HyBeacons and dual-labelled probes containing 2'-fluorescent groups for use in genetic analysis
Authors: Dobson N, McDowell DG, French DJ, Brown LJ, Mellor JM, Brown T.
Journal: Chem Commun (Camb) (2003): 1234
Authors: Dobson N, McDowell DG, French DJ, Brown LJ, Mellor JM, Brown T.
Journal: Chem Commun (Camb) (2003): 1234
Reduced aggregation and improved specificity of G-rich oligodeoxyribonucleotides containing pyrazolo[3,4-d]pyrimidine guanine bases
Authors: Kutyavin IV, Lokhov SG, Afonina IA, Dempcy R, Gall AA, Gorn VV, Lukhtanov E, Metcalf M, Mills A, Reed MW, S and ers S, Shishkina I, Vermeulen NM.
Journal: Nucleic Acids Res (2002): 4952
Authors: Kutyavin IV, Lokhov SG, Afonina IA, Dempcy R, Gall AA, Gorn VV, Lukhtanov E, Metcalf M, Mills A, Reed MW, S and ers S, Shishkina I, Vermeulen NM.
Journal: Nucleic Acids Res (2002): 4952
Diels--Alder bioconjugation of diene-modified oligonucleotides
Authors: Hill KW, Taunton-Rigby J, Carter JD, Kropp E, Vagle K, Pieken W, McGee DP, Husar GM, Leuck M, Anziano DJ, Sebesta DP.
Journal: J Org Chem (2001): 5352
Authors: Hill KW, Taunton-Rigby J, Carter JD, Kropp E, Vagle K, Pieken W, McGee DP, Husar GM, Leuck M, Anziano DJ, Sebesta DP.
Journal: J Org Chem (2001): 5352
Simultaneous detection of several oligonucleotides by time-resolved fluorometry: the use of a mixture of categorized microparticles in a sandwich type mixed-phase hybridization assay
Authors: Hakala H, Virta P, Salo H, Lonnberg H.
Journal: Nucleic Acids Res (1998): 5581
Authors: Hakala H, Virta P, Salo H, Lonnberg H.
Journal: Nucleic Acids Res (1998): 5581
Recovery of an oligonucleotide using silver ions immobilized onto paramagnetic particles
Authors: Ramirez-Vick JE, Garcia AA, Lee J.
Journal: Prep Biochem Biotechnol (1998): 243
Authors: Ramirez-Vick JE, Garcia AA, Lee J.
Journal: Prep Biochem Biotechnol (1998): 243
Synthesis and characterization of a new 5-thiol-protected deoxyuridine phosphoramidite for site-specific modification of DNA
Authors: Meyer KL, Hanna MM.
Journal: Bioconjug Chem (1996): 401
Authors: Meyer KL, Hanna MM.
Journal: Bioconjug Chem (1996): 401
Characterization of endonucleolytic activity of HIV-1 integrase using a fluorogenic substrate
Authors: Lee SP, Censullo ML, Kim HG, Knutson JR, Han MK.
Journal: Anal Biochem (1995): 295
Authors: Lee SP, Censullo ML, Kim HG, Knutson JR, Han MK.
Journal: Anal Biochem (1995): 295
Synthesis and characterisation of fluorescent oligonucleotides. Effect of internal labelling on protein recognition
Authors: Hagmar P, Bailey M, Tong G, Haralambidis J, Sawyer WH, Davidson BE.
Journal: Biochim Biophys Acta (1995): 259
Authors: Hagmar P, Bailey M, Tong G, Haralambidis J, Sawyer WH, Davidson BE.
Journal: Biochim Biophys Acta (1995): 259
Application notes
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